neherlab / treetimeLinks
Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction
☆248Updated last week
Alternatives and similar repositories for treetime
Users that are interested in treetime are comparing it to the libraries listed below
Sorting:
- A user-friendly workflow for phylogenomics☆222Updated 3 weeks ago
- snipit: summarise snps relative to your reference sequence☆162Updated 2 months ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆207Updated 3 months ago
- HyPhy: Hypothesis testing using Phylogenies☆245Updated this week
- Build a partitioned pangenome graph from microbial genomes☆287Updated 3 weeks ago
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆171Updated 2 years ago
- breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It…☆173Updated 3 weeks ago
- Bacterial ribosomal RNA predictor☆262Updated last week
- Convert various sequence formats to FASTA☆140Updated last week
- BSR-Based Allele Calling Algorithm☆146Updated last week
- Assembly and intrahost/low-frequency variant calling for viral samples☆148Updated 2 weeks ago
- Processing pipeline for pan-genome visulization and exploration☆142Updated 2 years ago
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆159Updated 5 months ago
- CAMISIM: Simulating metagenomes and microbial communities☆219Updated this week
- V-pipe is a pipeline designed for analysing NGS data of short viral genomes☆144Updated 3 weeks ago
- A tool to circularize genome assemblies☆249Updated last year
- Pan-genome wide association studies☆205Updated last year
- baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development…☆114Updated last week
- An updated pipeline for pangenome investigation☆332Updated 9 months ago
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆130Updated last week
- Classifier for metagenomic sequences☆267Updated 5 months ago
- Finds SNP sites from a multi-FASTA alignment file☆269Updated 4 years ago
- A sequencing simulator☆214Updated 5 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆335Updated 3 months ago
- Download files from NCBI Entrez by accession☆131Updated last year
- Efficient phylogenomic software by maximum likelihood☆203Updated 4 years ago
- Rapid large-scale prokaryote pan genome analysis☆364Updated last month
- Pipeline for metabolic annotation of microbial genomes☆150Updated 8 months ago
- Antimicrobial Resistance Identification By Assembly☆182Updated 2 years ago
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆242Updated this week